Structure Summary pages

MMDB s Web interface provides a Structure Smnmary page for each MMDB structure record, as shown in Figure 5.4. MMDB Structure Summary pages provide the FASTA-formatted sequences for each chain in the structure, links to MEDLINE references, links to the SDBAtlas record and the Brookhaven PDB site, links to protein or nucleic acid sequence neighbors for each chain in the structure, and links to VAST structure-structure comparisons for each domain on each chain in the structure. 

Figure 5.4. Structure query from NCBI with the structure IBNR (Bycroft et al., 1991). The Structure Summary links the user to RCSB through the PDB ID link, as well as to validated sequence files for each biopolymer, sequence, and three-dimensional structure neighbors through the VAST system. This system is more efficient than the RCSB system (Fig. 5.2) for retrieval because visualization, sequence, and structure neighbor links are made directly on the structure summary page and do not require fetching more Web pages.

Figure 12.5. Summary page of PDBsum. The summary page for human lysozyme complex (1LZC) shows hyperlinks to various structure analyses.

No work has been done so far. The conclusions of AGNES project states, that it would be very desirable to validate the containment thermal hydraulic models on the basis of a full scale experiment and continue the containment strength analyses. As a result the thermal-hydraulic functions of the containment and the bubbler condenser system could be assessed and the interaction between the flowing medium and the structural elements within the containment could be tested (AGNES Summary, page 36). 

This data collection effort was concentrated on the following components because of their extensive populations and repair action documentation pumps, valves, electrical positioning devices, electric motors, and drives. For each component type, preface pages and data summary tables are provided. Separate data summary tables are provided for each component type and are structured in a format that allows for the inclusion of the number of pieces of operating equipment, the total number of operating hours, total number of failures, and hourly failure rates with upper and lower bounds. 

The common atomic coordinate files for 3D structure in biochemistry is PDB format. The pdb files of polysaccharides, proteins, and nucleic acids can be retrieved from the Protein Data Bank at RCSB (http //www.rcsb.org/pdb/). On the home page (Figure 4.15), enter PDB ID (check the box query by PDB id only ) or keywords (check the box match exact word ) and click Find a structure button. Alternatively, initiate search/retrieval by selecting SearchLite. On the query page, enter the keyword (e.g., the name of ligand or biomacromolecule) and click Search button. Select the desired entry from the list of hits to access Summary information of the selected molecule. From the Summary information, select Download/Display file and then PDB Text and PDB noncompression format to retrieve the pdb file. In order to display 3D structure online, choose View structure followed by selecting one of 3D display options. The display can be saved in. jpg or. gif image format. 

These structures are not equal in estimated energy. The first structure has the positive charge on nitrogen. The second has the positive charge on carbon, and the carbon atom does not have an octet. The first structure is more stable because it has an additional bond and all the atoms have octets. Many stable ions have a positive charge on a nitrogen atom with four bonds (see the Summary Table, page 13). We call the more stable resonance form the major contributor, and the less stable form is the minor contributor. The structure of the actual compound resembles the major contributor more than it does the minor contributor. 

There are now a number of 2D and 3D molecule viewers available for free download, which work to make chemical structures visible on web pages. A summary of some of the... 

There are many desirable features worthy of consideration, among which a clear structure is important, particularly in the case of very long reports. Some CERs can extend to well over 100 pages, in which case a summary document should be considered. 

It also can be handy to have several copies of a one-page (or half-page) handout with your name, poster title, affiliation, meeting date, and addresses (e-mail, etc.) along with a summary of vour poster, structure of the compound you prepared, or whatever is most appropriate. These handouts can be given to those who seem particularly interested and with whom you may later wish to correspond. It may be difficult to estimate demand for these—you do not want to hand them out like advertising leaflets—but don t be too modest. 

In summary, the nature of the chylomicron protein is undetermined. It is possible that during fat absorption a protein is formed in the cells of intestinal mucosa, perhaps in the ribosomal fraction, at the same time that triglyceride synthesis occurs. The newly formed protein or proteins may be unrelated to plasma lipoproteins and perhaps constitute the structural chylomicron protein corrresponding to the unidentified fraction in the studies by Rodbell et al. (1 9) and Scanu and Page (1959). Upon entering the lymph and then the blood, chylomicrons may acquire additional protein at the expense of circulating hpoproteins of hepatic derivation (Scanu and Page, 1959). 

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